bounds function

Bounds of a Numeric Vector

Bounds of a Numeric Vector

Find the bounds (i.e. start, end and length) of consecutive numbers within a larger set of numbers in a given vector.

bounds(nums, dup.inds=FALSE, pre.sort=TRUE)

Arguments

  • nums: a numeric vector.
  • dup.inds: logical, if TRUE the bounds of consecutive duplicated elements are returned.
  • pre.sort: logical, if TRUE the input vector is ordered prior to bounds determination.

Details

This is a simple utility function useful for summarizing the contents of a numeric vector. For example: find the start position, end position and lengths of secondary structure elements given a vector of residue numbers obtained from a DSSP secondary structure prediction.

By setting dup.inds to TRUE then the indices of the first (start) and last (end) duplicated elements of the vector are returned. For example: find the indices of atoms belonging to a particular residue given a vector of residue numbers (see below).

Returns

Returns a three column matrix listing starts, ends and lengths.

References

Grant, B.J. et al. (2006) Bioinformatics 22 , 2695--2696.

Author(s)

Barry Grant

Examples

test <- c(seq(1,5,1),8,seq(10,15,1)) bounds(test) test <- rep(c(1,2,4), times=c(2,3,4)) bounds(test, dup.ind=TRUE)
  • Maintainer: Barry Grant
  • License: GPL (>= 2)
  • Last published: 2024-10-29